This list is a guide for playing with the Command artifact, to maximize both the items you acquire and the damage you deal. It’s still a good guide for playing with totally random items, but It’s really more of a checklist in that case. I play with the Glass artifact a lot- only one minor change has to be made for that case, which I noted.
In the cases where items are useful, I ordered them by my own personal prioritization. In several cases where I only grab one of an item, I grab it first to get it out of the way, unless something else is more immediately useful.
I colored the items by their rarity. Boss items in command mode are unique, because they don't come in a box- they actually drop.
These items are the most important- get as many as you can!
Crowbar
Paul’s Goat Hoof
Mysterious Vial
Tough Times
Soldier’s Syringe (This one depends on character- it’s pretty useless for Sniper so I’ve heard)
These items have a known cap on their usefulness (or I chose a soft limit), so only get a certain amount of them. I gave my reasoning for the limits, or said it was an optional one.
56 Leaf Clover: Get 8x (limited according to wiki)
Infusion: Get 5x, more if you’re playing with the Glass artifact
Lens Maker’s Glasses: Get 10x (10%*10=100%)
Hermit’s Scarf: Get 4x (limited according to wiki)
Bustling Fungus: Get 22x (4.5%*22=99%, good for Temple of Elders farming)
Thallium: Get 1x (limited according to wiki)
The Hit List: Get 1x, more if you’re impatient
Golden Gun: Get 1x (more does not increase damage)
Ancient Scepter: Get 1x, more is optional
Shattering Justice: Get 1x, more is optional
Photon Jetpack: Get 1x, more is optional
Rusty Jetpack: Get a lot. Jumping really high is very useful.
Heaven Cracker: Get 4x (every 4th, every 3rd, every 2nd, every hit)
Wicked Ring: Get as many as the highest cooldown you have
Alien Head: Wicked ring is more effective, but I recommend 3x
Predatory Instincts: Get 20x (5%*20=100%)
Harvester’s Scythe: Get 20x (5%*20=100%)
Telescopic Sight: Get 5x (limited according to wiki)
Beating Embryo: Get 4x (30%*4=120%)
Rapid Mitosis: Get 4x (limited according to wiki)
Smart Shopper: Get 3x, (powers the Golden Gun quickly and opens chests)
These items aren’t required, but aren’t harmful either. You decide whether or not to get them.
Meat Nugget
Warbanner
Monster Tooth
Bitter Root
Sprouting Egg
Snake Eyes
Spikestrip
Life Savings
Medkit
Energy Cell
Boxing Gloves
Leeching Seed
Concussion Grenade
Prison Shackles
Guardian’s Heart
Time Keeper’s Secret
Filial Imprinting
The Ol’ Lopper
Permafrost
White Undershirt (M)
Colossal Knurl
These items deal automatic or indirect damage that would negate the usefulness of Crowbars. Do not get any of them.
ALL TURRETS except healing ones UNLESS YOU HAVE THE ARMS RACE
Gasoline
Barbed Wire
Mortar Tube
Rusty Knife
Sticky Bomb
Fire Shield
Dead Man’s Foot
Arms Race
AtG Missile Mk. 1
Chargefield Generator
Toxic Worm
Ukulele
Will-o’-the-wisp
Panic Mines
Hyper Threader
Headstompers
Fireman’s Boots
AtG Missile Mk. 2
Brilliant Behemoth
Tesla Coil
Repulsion Armor
Old Box
Plasma Chain
Imp Overlord’s Tentacle
Burning Witness
Ifrit’s Horn
Legendary Spark
These items have special instructions
Ceremonial Dagger: Get 1x ASAP if you want some security early game, otherwise do not get
Happiest Mask: Get 1x ASAP if you want some security early game, otherwise do not get
Dio’s Best Friend: Get 1x, but don’t get more until used
Let me know if it's a bit difficult to read with [THINLINES]